• Home
  • Jerzy Wieslaw Kozyra
Jerzy Wieslaw Kozyra

Jerzy Wieslaw Kozyra
Nanovery

Doctor of Philosophy

About

13
Publications
7,910
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
61
Citations
Additional affiliations
June 2016 - January 2017
Newcastle University
Position
  • Research Assistant
Education
October 2011 - August 2016
Newcastle University
Field of study
  • Computing Science
September 2007 - August 2011
University of Nottingham
Field of study
  • Computer Science with Artificial Intelligence

Publications

Publications (13)
Article
Full-text available
The scaffolded origami technique is an attractive tool for engineering nucleic acid nanostructures. This paper demonstrates scaffolded RNA origami folding in vitro in which, for the first time, all components are transcribed simultaneously in a single-pot reaction. Double-stranded DNA sequences are transcribed by T7 RNA polymerase into scaffold and...
Article
Full-text available
As DNA sequencing and synthesis become cheaper and more easily accessible, the scale and complexity of biological engineering projects is set to grow. Yet, although there is an accelerating convergence between biotechnology and digital technology, a deficit in software and laboratory techniques diminishes the ability to make biotechnology more agil...
Preprint
Full-text available
The scaffolded origami technique has provided an attractive tool for engineering nucleic acid nanostructures. This paper demonstrates scaffolded RNA origami folding in vitro in which all components are transcribed simultaneously in a single-pot reaction. Double-stranded DNA sequences are transcribed by T7 RNA polymerase into scaffold and staple str...
Preprint
As DNA sequencing and synthesis become cheaper and more easily accessible, the scale and complexity of biological engineering projects is set to grow. Yet, although there is an accelerating convergence between biotechnology and computing science, a deficit in software and laboratory techniques diminishes the ability to make biotechnology more agile...
Article
Full-text available
Design of experiments (DOE) enables scientists to explore complex, multidimensional spaces against a background of experimental variability with the minimum of resource. While these methods are most successful when combined with expert knowledge to define the design space and capture the dimensionality of the problem, many scientists believe, often...
Data
Data to support Data Availability Statement Harold Fellermann, Ben Shirt-Ediss, Jerzy W Koryza, Matthew Linsley, Dennis W Lendrem, John D Isaacs, Thomas J Howard 2019 Design of Experiments and the Virtual PCR Simulator: an online game for pharmaceutical scientists and biotechnologists. Pharmaceutical Statistics, In press.
Preprint
Full-text available
Our PCR Simulator is a web-based application designed to introduce concepts of multi-factorial experimental design and support teaching of the polymerase chain reaction. Learners select experimental settings and receive results of their simulated reactions quickly, allowing rapid iteration between data generation and analysis. This enables the stud...
Article
Full-text available
RNA presents intringuing roles in many cellular processes and its versatility underpins many different applications in synthetic biology. Nonetheless, RNA origami as a method for nanofabrication is not yet fully explored and the majority of RNA nanostructures are based on natural pre-folded RNA. Here we describe a biologically inert and uniquely ad...
Conference Paper
We recently reported the design for a DNA nano-device that can record and store molecular signals. Here we present an evolutionary algorithm tailored to optimising nucleic acid sequences that predictively fold into our desired target structures. In our approach, a DNA device is first specified abstractly: the topology of the individual strands and...
Article
Nanotechnology and synthetic biology are rapidly converging, with DNA origami being one of the leading bridging technologies. DNA origami was shown to work well in a wide array of biotic environments. However, the large majority of extant DNA origami scaffolds utilize bacteriophages or plasmid sequences thus severely limiting its future applicabili...
Conference Paper
Full-text available
We present an implementation of an in vitro signal recorder based on DNA assembly and strand displacement. The signal recorder implements a stack data structure in which both data as well as operators are represented by single stranded DNA " bricks ". The stack grows by adding push and write bricks and shrinks in last-in-first-out manner by adding...

Network

Cited By

Projects

Project (1)
Project
http://portabolomics.ico2s.org